* installing *source* package ‘glmmsel’ ...
** this is package ‘glmmsel’ version ‘1.0.2’
** package ‘glmmsel’ successfully unpacked and MD5 sums checked
** using staged installation
** libs
using C++ compiler: ‘g++ (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)’
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/glmmsel/src'
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include "-Iinclude" -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include "-Iinclude" -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c auxiliary.cpp -o auxiliary.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include "-Iinclude" -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c cd.cpp -o cd.o
In file included from /usr/include/c++/15/cmath:59,
from /data/gannet/ripley/R/test-dev/Rcpp/include/Rcpp/platform/compiler.h:100,
from /data/gannet/ripley/R/test-dev/Rcpp/include/Rcpp/r/headers.h:66,
from /data/gannet/ripley/R/test-dev/Rcpp/include/RcppCommon.h:30,
from /data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo/interface/RcppArmadilloForward.h:25,
from /data/gannet/ripley/R/test-dev/RcppArmadillo/include/RcppArmadillo.h:29,
from cd.cpp:1:
In function ‘constexpr double std::abs(double)’,
inlined from ‘void cd::update_intercept(fit&, const data&)’ at cd.cpp:133:43:
/usr/include/c++/15/bits/std_abs.h:78:30: warning: ‘delta_beta0’ may be used uninitialized [-Wmaybe-uninitialized]
78 | { return __builtin_fabs(__x); }
| ^
cd.cpp: In member function ‘void cd::update_intercept(fit&, const data&)’:
cd.cpp:92:10: note: ‘delta_beta0’ was declared here
92 | double delta_beta0;
| ^~~~~~~~~~~
In function ‘constexpr double std::abs(double)’,
inlined from ‘void cd::update_intercept(fit&, const data&)’ at cd.cpp:133:66:
/usr/include/c++/15/bits/std_abs.h:78:30: warning: ‘delta_gamma0’ may be used uninitialized [-Wmaybe-uninitialized]
78 | { return __builtin_fabs(__x); }
| ^
cd.cpp: In member function ‘void cd::update_intercept(fit&, const data&)’:
cd.cpp:93:10: note: ‘delta_gamma0’ was declared here
93 | double delta_gamma0;
| ^~~~~~~~~~~~
cd.cpp: In member function ‘void cd::compute_lambda(const fit&, data&, const arma::mat&, const arma::uvec&)’:
cd.cpp:28:12: warning: ‘lambda_k’ may be used uninitialized [-Wmaybe-uninitialized]
28 | double lambda_k;
| ^~~~~~~~
In function ‘constexpr double std::abs(double)’,
inlined from ‘void cd::update_slope(fit&, const data&, const arma::uword&)’ at cd.cpp:206:43:
/usr/include/c++/15/bits/std_abs.h:78:30: warning: ‘delta_beta’ may be used uninitialized [-Wmaybe-uninitialized]
78 | { return __builtin_fabs(__x); }
| ^
cd.cpp: In member function ‘void cd::update_slope(fit&, const data&, const arma::uword&)’:
cd.cpp:151:10: note: ‘delta_beta’ was declared here
151 | double delta_beta;
| ^~~~~~~~~~
In function ‘constexpr double std::abs(double)’,
inlined from ‘void cd::update_slope(fit&, const data&, const arma::uword&)’ at cd.cpp:206:65:
/usr/include/c++/15/bits/std_abs.h:78:30: warning: ‘delta_gamma’ may be used uninitialized [-Wmaybe-uninitialized]
78 | { return __builtin_fabs(__x); }
| ^
cd.cpp: In member function ‘void cd::update_slope(fit&, const data&, const arma::uword&)’:
cd.cpp:152:10: note: ‘delta_gamma’ was declared here
152 | double delta_gamma;
| ^~~~~~~~~~~
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include "-Iinclude" -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c fitpath.cpp -o fitpath.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include "-Iinclude" -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c ls.cpp -o ls.o
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include "-Iinclude" -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c path.cpp -o path.o
path.cpp: In member function ‘void path::run(cd&, ls&, pql&)’:
path.cpp:50:39: warning: comparison of integer expressions of different signedness: ‘arma::enable_if2<true, unsigned int>::result’ {aka ‘unsigned int’} and ‘int’ [-Wsign-compare]
49 | if (compute_lambda && (data.intercept + data.random_intercept + arma::sum(fit.beta != 0) +
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
50 | arma::sum(fit.gamma != 0) + 1 >= data.n)) {
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~
path.cpp:92:34: warning: comparison of integer expressions of different signedness: ‘int’ and ‘unsigned int’ [-Wsign-compare]
92 | if (compute_lambda && (nnz_i == data.p)) {
| ~~~~~~^~~~~~~~~
g++ -std=gnu++17 -I"/data/gannet/ripley/R/R-devel/include" -DNDEBUG -I'/data/gannet/ripley/R/test-dev/Rcpp/include' -I'/data/gannet/ripley/R/test-dev/RcppArmadillo/include' -I/usr/local/include "-Iinclude" -fpic -g -O2 -Wall -pedantic -mtune=native -Wno-ignored-attributes -Wno-parentheses -Wp,-D_FORTIFY_SOURCE=3 -fexceptions -fstack-protector-strong -fstack-clash-protection -fcf-protection -c pql.cpp -o pql.o
g++ -std=gnu++17 -shared -L/usr/local/lib64 -o glmmsel.so RcppExports.o auxiliary.o cd.o fitpath.o ls.o path.o pql.o -llapack -L/data/gannet/ripley/R/R-devel/lib -lRblas -lgfortran -lm -lquadmath
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/glmmsel/src'
make[1]: Entering directory '/data/gannet/ripley/R/packages/tests-devel/glmmsel/src'
make[1]: Leaving directory '/data/gannet/ripley/R/packages/tests-devel/glmmsel/src'
installing to /data/gannet/ripley/R/packages/tests-devel/glmmsel.Rcheck/00LOCK-glmmsel/00new/glmmsel/libs
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (glmmsel)